dbEM
A Database of Epigenetic Modifiers
Cite: Nanda JS, Kumar R, Raghava GP. (2016) dbEM: A database of epigenetic modifiers curated from cancerous and normal genomes. Sci Rep. 6:19340.
Protein: MTA3 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 587350 LARGE INTESTINE c.1468C>T p.R490W COSMIC PASSENGER/OTHER Probably Damaging 2 ESO-0176 OESOPHAGUS c.1113G>A p.Q371Q COSMIC NP NP 3 ESO-S41 OESOPHAGUS c.1441C>G p.Q481E COSMIC PASSENGER/OTHER Benign 4 GC1_T STOMACH c.108C>T p.G36G COSMIC NP NP 5 LC_S9 LUNG c.557delG p.S186fs*12 COSMIC NP NP 6 LUAD-E00934 LUNG c.1156C>T p.Q386* COSMIC NP NP 7 LUAD-S01315 LUNG c.496G>C p.E166Q COSMIC PASSENGER/OTHER Probably Damaging 8 NB-1243 AUTONOMIC GANGLIA c.1098C>G p.T366T COSMIC NP NP 9 TCGA-24-1423-01 OVARY c.922G>C p.E308Q COSMIC PASSENGER/OTHER Probably Damaging 10 TCGA-34-5927-01 LUNG c.417A>G p.S139S COSMIC NP NP 11 TCGA-50-6590-01 LUNG c.273C>G p.L91L COSMIC NP NP 12 TCGA-50-6593-01 LUNG c.552A>T p.P184P COSMIC NP NP 13 TCGA-51-4079-01 LUNG c.1374A>G p.P458P COSMIC NP NP 14 TCGA-55-8089-01 LUNG c.1052C>T p.S351F COSMIC PASSENGER/OTHER Probably Damaging 15 TCGA-55-8089-01 LUNG c.816A>T p.S272S COSMIC NP NP 16 TCGA-56-5897-01 LUNG c.1300G>C p.E434Q COSMIC PASSENGER/OTHER Possibly Damaging 17 TCGA-60-2726-01 LUNG c.752C>A p.A251D COSMIC PASSENGER/OTHER Probably Damaging 18 TCGA-66-2781-01 LUNG c.405C>G p.V135V COSMIC NP NP 19 TCGA-78-7158-01 LUNG c.735C>T p.S245S COSMIC NP NP 20 TCGA-A2-A0YH-01 BREAST c.477C>T p.D159D COSMIC NP NP 21 TCGA-A6-6653-01 LARGE INTESTINE c.709G>A p.A237T COSMIC PASSENGER/OTHER Probably Damaging 22 TCGA-AA-A010-01 LARGE INTESTINE c.143G>A p.R48Q COSMIC PASSENGER/OTHER Probably Damaging 23 TCGA-AG-A002-01 LARGE INTESTINE c.1039C>T p.P347S COSMIC PASSENGER/OTHER Probably Damaging 24 TCGA-AP-A059-01 ENDOMETRIUM c.1106A>T p.Q369L COSMIC PASSENGER/OTHER Benign 25 TCGA-AP-A059-01 ENDOMETRIUM c.235A>G p.T79A COSMIC PASSENGER/OTHER Probably Damaging 26 TCGA-AP-A0L9-01 ENDOMETRIUM c.409G>A p.D137N COSMIC PASSENGER/OTHER Probably Damaging 27 TCGA-AU-6004-01 LARGE INTESTINE c.579T>C p.I193I COSMIC NP NP 28 TCGA-B0-5712-01 KIDNEY c.994A>T p.S332C COSMIC PASSENGER/OTHER Probably Damaging 29 TCGA-B5-A121-01 ENDOMETRIUM c.1457C>G p.T486S COSMIC PASSENGER/OTHER Benign 30 TCGA-BH-A0AV-01 BREAST c.1130G>A p.R377K COSMIC CANCER Probably Damaging 31 TCGA-BH-A0DT-01 BREAST c.729A>C p.R243S COSMIC PASSENGER/OTHER Benign 32 TCGA-BS-A0UF-01 ENDOMETRIUM c.1215T>G p.I405M COSMIC CANCER Possibly Damaging 33 TCGA-CI-6624-01 LARGE INTESTINE c.918_919insA p.I307fs*2 COSMIC NP NP 34 TCGA-CK-6746-01 LARGE INTESTINE c.53C>A p.S18Y COSMIC PASSENGER/OTHER Probably Damaging 35 TCGA-CM-5864-01 LARGE INTESTINE c.1083T>C p.N361N COSMIC NP NP 36 TCGA-D1-A103-01 ENDOMETRIUM c.1275G>T p.E425D COSMIC PASSENGER/OTHER Benign 37 TCGA-G4-6628-01 LARGE INTESTINE c.851delA p.K285fs*19 COSMIC NP NP 38 ccRCC-70 KIDNEY c.55A>G p.S19G COSMIC PASSENGER/OTHER Benign
*NP: Not Predicted -
Copy number variation and expression profile (+)
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Gene Essentiality Data (+)
Note: Lower the GARP score (more negative), higher the essentiality of the gene. P-value tells about the significane of GARP score.test -
Tertiary structure (+)
Users must enabled the Java in their browser to see structure.
Users can also download Java from here.Modelled Structure Structures available in PDB Structure is not available in PDB -
Structure Domains (+)
1. PFAM Domains:Domain ID Domain Name Start Site End Site E-value PF01426 BAH 4 147 1.6e-31 PF01448 ELM2 150 202 3.9e-13 PB017016 Pfam-B_17016 222 330 1.4e-05 PB003763 Pfam-B_3763 263 319 1.4e-06 PF00320 GATA 379 415 4.2e-08 PB011869 Pfam-B_11869 425 489 7.3e-40 2. Superfamily Domains:Domain ID Start Site End Site E-value 0052261 269 321 4.33e-12 0048088 7 139 1.83e-04 0045592 375 415 8.55e-03 -
Sequence Alignment (+)
Users must enabled the Java in their browser to see sequence alignments.
Users can also download Java from here.1. Sequence alignment with 1000 genome variations:
Click on button to get Sequence alignment with Coverage, Consensus and Quality 2. Mutants are not present in CCLE!!3. Sequence alignment with COSMIC mutants:
Click on button to get Sequence alignment with Coverage, Consensus and Quality 4. Sequence alignment with homologus proteins:
Click on button to get Sequence alignment with Coverage, Consensus and Quality -
Sequence Profiles (+)
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Post Translational Modifications (+)
$x "); for($d=2;$d<$l777;$d++) { fwrite($FP6,$row6[$d]); fwrite($FP7,"$row6[$d] "); fwrite($FP6,"\t"); } fwrite($FP6,"\n"); fwrite($FP7,""); } fclose($FP6); echo""; } else{echo"
"; ##### table ##### $ptm_tr=file_get_contents("$dir/ptm"); if($ptm_tr != '') { echo"S. No. Position Amino acid Type Post translational modifications are not found!!";} ?> -
Other Databases Link (+)
Proteomics DB COSMIC Gene Atlas STRING PIR MTA3 MTA3 MTA3 ENSP00000385823 Q9BTC8 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q9BTC8 MTA3 ENSP00000385823 MTA3 Q9BTC8 Expression Atlas Protein Atlas OMIM IntAct PharmGKB MTA3 ENSP00000385823 609050 Q9BTC8 PA134953540
